R
Raktima Raychowdhury
Researcher at Broad Institute
Publications - 31
Citations - 8141
Raktima Raychowdhury is an academic researcher from Broad Institute. The author has contributed to research in topics: Gene & Transcription factor. The author has an hindex of 20, co-authored 31 publications receiving 6670 citations. Previous affiliations of Raktima Raychowdhury include Massachusetts Institute of Technology.
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Journal ArticleDOI
Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells
Alex K. Shalek,Rahul Satija,Xian Adiconis,Rona S. Gertner,Jellert T. Gaublomme,Raktima Raychowdhury,Schraga Schwartz,Nir Yosef,Christine M. Malboeuf,Diana Lu,John J. Trombetta,David Gennert,Andreas Gnirke,Alon Goren,Alon Goren,Nir Hacohen,Nir Hacohen,Joshua Z. Levin,Hongkun Park,Hongkun Park,Aviv Regev,Aviv Regev +21 more
TL;DR: The authors used single-cell RNA-Seq to investigate heterogeneity in the response of bone marrow derived dendritic cells (BMDCs) to lipopolysaccharide (LPS) and found extensive, and previously unobserved, bimodal variation in mRNA abundance and splicing patterns.
Journal ArticleDOI
A single-cell survey of the small intestinal epithelium
Adam L. Haber,Moshe Biton,Moshe Biton,Noga Rogel,Rebecca H. Herbst,Rebecca H. Herbst,Karthik Shekhar,Christopher Smillie,Grace Burgin,Toni Delorey,Toni Delorey,Michael R. Howitt,Yarden Katz,Itay Tirosh,Semir Beyaz,Danielle Dionne,Mei Zhang,Raktima Raychowdhury,Wendy S. Garrett,Wendy S. Garrett,Orit Rozenblatt-Rosen,Hai Ning Shi,Ömer H. Yilmaz,Ömer H. Yilmaz,Ramnik J. Xavier,Ramnik J. Xavier,Aviv Regev +26 more
TL;DR: This paper reported profiling of 53,193 individual epithelial cells from the small intestine and organoids of mice, which enabled the identification and characterization of previously unknown subtypes of intestinal epithelial cell and their gene signatures.
Journal ArticleDOI
Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of Pooled Genetic Screens
Atray Dixit,Atray Dixit,Oren Parnas,Biyu Li,Jenny Chen,Jenny Chen,Charles P. Fulco,Charles P. Fulco,Livnat Jerby-Arnon,Nemanja D. Marjanovic,Nemanja D. Marjanovic,Danielle Dionne,Tyler Burks,Raktima Raychowdhury,Britt Adamson,Thomas M. Norman,Eric S. Lander,Eric S. Lander,Eric S. Lander,Jonathan S. Weissman,Jonathan S. Weissman,Nir Friedman,Nir Friedman,Aviv Regev,Aviv Regev,Aviv Regev +25 more
TL;DR: Perturb-seq as discussed by the authors combines single-cell RNA sequencing and clustered regularly interspaced short palindromic repeats (CRISPR)-based perturbations to perform many such assays in a pool.
Journal ArticleDOI
Single-cell RNA-seq reveals dynamic paracrine control of cellular variation
Alex K. Shalek,Rahul Satija,Joe Shuga,John J. Trombetta,David Gennert,Diana Lu,Peilin Chen,Rona S. Gertner,Jellert T. Gaublomme,Nir Yosef,Schraga Schwartz,Brian Fowler,Suzanne Weaver,Jing Wang,Xiaohui Wang,Ruihua Ding,Raktima Raychowdhury,Nir Friedman,Nir Hacohen,Hongkun Park,Andrew May,Aviv Regev +21 more
TL;DR: This study highlights the importance of cell-to-cell communication in controlling cellular heterogeneity and reveals general strategies that multicellular populations can use to establish complex dynamic responses.
Journal ArticleDOI
Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells
Michal Rabani,Joshua Z. Levin,Lin Fan,Xian Adiconis,Raktima Raychowdhury,Manuel Garber,Andreas Gnirke,Chad Nusbaum,Nir Hacohen,Nir Friedman,Ido Amit,Aviv Regev,Aviv Regev +12 more
TL;DR: This study combines metabolic labeling of RNA at high temporal resolution with advanced RNA quantification and computational modeling to estimate RNA transcription and degradation rates during the response of mouse dendritic cells to lipopolysaccharide.